/**
 * UGENE - Integrated Bioinformatics Tools.
 * Copyright (C) 2008-2020 UniPro <ugene@unipro.ru>
 * http://ugene.net
 *
 * This program is free software; you can redistribute it and/or
 * modify it under the terms of the GNU General Public License
 * as published by the Free Software Foundation; either version 2
 * of the License, or (at your option) any later version.
 *
 * This program is distributed in the hope that it will be useful,
 * but WITHOUT ANY WARRANTY; without even the implied warranty of
 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
 * GNU General Public License for more details.
 *
 * You should have received a copy of the GNU General Public License
 * along with this program; if not, write to the Free Software
 * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston,
 * MA 02110-1301, USA.
 */

#ifndef _DNA_ALPHABET_REGISTRY_IMPL_H_
#define _DNA_ALPHABET_REGISTRY_IMPL_H_

#include <U2Core/DNAAlphabet.h>

namespace U2 {

class DNATranslationRegistry;

class U2CORE_EXPORT DNAAlphabetRegistryImpl : public DNAAlphabetRegistry {
    Q_OBJECT
public:
    DNAAlphabetRegistryImpl(DNATranslationRegistry *tr);
    ~DNAAlphabetRegistryImpl();

    virtual bool registerAlphabet(const DNAAlphabet *a);

    virtual void unregisterAlphabet(const DNAAlphabet *a);

    virtual const DNAAlphabet *findById(const QString &id) const;

    virtual QList<const DNAAlphabet *> getRegisteredAlphabets() const {
        return alphabets;
    }

private:
    void initBaseAlphabets();
    void initBaseTranslations();
    void reg4tables(const char *amino, const char *role, const char *n1, const char *n2, const char *n3, const QString &id, const QString &name);

    void regPtables(const char *amino, const int *prob, const char *n1, const char *n2, const char *n3, const QString &id, const QString &name);

    QList<const DNAAlphabet *> alphabets;
    DNATranslationRegistry *treg;
};

}    // namespace U2

#endif
